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Series GSE134240 Query DataSets for GSE134240
Status Public on Nov 30, 2019
Title Single Cell RNA-seq analysis of gene expression patterns of cells from stem-cell-derived-synthetic-blastocysts, called as 'ES-' or 'EPS-blastoids'.
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary To test the efficacy of stem cell lines to generate 'stem-cell-derived-synthetic blastocysts', we dissociated ES- (built by conventional embryonic stem cells and trophoblast stem cells) or EPS-blastoids (built by extended potential pluripotent stem cells and trophoblast stem cells) into single cells following 96h of culture for single-cell transcriptome analysis.
 
Overall design Examination of gene expression patterns of cells was performed with the single-cell transcriptome analysis following 96h of culture. Single-cell transcriptome analysis was performed using an inDrops v3 barcoding scheme, and the data preprocessing was performed according to the Github inDrops analysis pipeline in order to generate count matrices (https://github.com/indrops/indrops). The transcriptomic analysis comprises three replicates of SB-EP, two replicates of SB-2iLif and one replicate of natural mouse embryo cells at E4.5.
 
Contributor(s) De Jonghe J, Sozen B, Cox A, Hollfelder F, Zernicka-Goetz M
Citation(s) 31846649, 33378662
Submission date Jul 13, 2019
Last update date Feb 22, 2021
Contact name Florian Hollfelder
E-mail(s) fh111@cam.ac.uk
Organization name University of Cambridge
Street address 80 tennis court road
City Cambridge
ZIP/Postal code CB21GA
Country United Kingdom
 
Platforms (1)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (1)
GSM3940220 SB-EP, SB-2ilif and NatE45 (mixture of 6 samples)
Relations
BioProject PRJNA554449
SRA SRP214529

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE134240_RAW.tar 29.5 Mb (http)(custom) TAR (of MTX, TSV)
GSE134240_Readme.txt 660 b (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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